SMTL ID : 7qhr.1 (1 other biounit)

Unexpected imidazole coordination to dirhodium tetraacetate complex in a protein environment: insights from X-ray crystallography and quantum chemistry

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

monomer

Ligands

1 x D1O: tri-(mi2-acetato-(O, O')-diaqua-dirhodium(II, II)(Non-covalent)

D1O.1: 8 residues within 4Å: Chain A: K.7, F.8, Q.11, H.12, K.41, V.118, H.119, F.120 13 PLIP interactions: 12 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:V.118 Hydrogen bonds: A:H.119 Water bridges: A:K.7, A:K.7, A:H.12, A:K.41 Salt bridges: A:K.7, A:K.7, A:H.119, A:H.119, A:H.119 Metal complexes: A:H.119, H2O.1

1 x D3I: octaaqua-dirhodium (II, II) fragment(Non-covalent)

D3I.2: 3 residues within 4Å: Chain A: T.78, H.105 Ligands: CJI.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.105 Metal complexes: A:H.105, A:H.105

1 x CJI: cis-mi2-acetato-(O, O')-N-imidazyl-pentaaqua-dirhodium(II, II)(Non-covalent)

CJI.3: 7 residues within 4Å: Chain A: K.61, Q.74, S.75, Y.76, H.105, V.124 Ligands: D3I.2 8 PLIP interactions: 7 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: A:K.61 Hydrogen bonds: A:H.105 Water bridges: A:H.105 Salt bridges: A:H.105 pi-Stacking: A:H.105 Metal complexes: A:Y.76, A:H.105, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Loreto, D. et al., Unexpected Imidazole Coordination to the Dirhodium Center in a Protein Environment: Insights from X-ray Crystallography and Quantum Chemistry. Inorg.Chem. (2022)

Release Date

2022-06-08

Peptides

Ribonuclease pancreatic: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Ribonuclease pancreatic

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